Exploiting phylogenetics to understand genome evolution in both modern and ancestral organisms

Computational evolutionary analyses, particularly phylogenetics and ancestral reconstruction, have been extensively exploited under different algorithms and evolutionary models to better understand genome evolution from both small- and large-scale perspectives in order to assign genotypes based on a...

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Bibliographic Details
Main Author: Zhao, Ziming
Other Authors: Gaucher, Eric
Language:en_US
Published: Georgia Institute of Technology 2013
Subjects:
Online Access:http://hdl.handle.net/1853/48988
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spelling ndltd-GATECH-oai-smartech.gatech.edu-1853-489882013-11-05T03:31:38ZExploiting phylogenetics to understand genome evolution in both modern and ancestral organismsZhao, Ziming3-isopropylmalate dehydrogenaseCateninMycoplasmaBioinformaticsMolecular evolutionPaleoenvironmentSynthetic genomeAvian influenza virusMinimal genomePhylogenyEvolution (Biology)BioinformaticsComputational evolutionary analyses, particularly phylogenetics and ancestral reconstruction, have been extensively exploited under different algorithms and evolutionary models to better understand genome evolution from both small- and large-scale perspectives in order to assign genotypes based on assortment, resolve species relationships and gene annotation issues, further understand gene gain/loss within individual gene families, measure functional divergence among homologs, and infer ancestral character states. These evolutionary studies provide us with insights into biologically relevant issues including paleoenvironments inferred from resurrected proteins, developmental physiology associated with functional divergence of duplicated genes, viral epidemics and modes of transmission in attempt to better prepare, prevent and control diseases, evolution of lineage-specific pathogenicity, and attempts to create a synthetic ancient organism that would benefit the field of synthetic biology. Our work also provides us with greater insights into the accuracies and limitations of ancestral sequence reconstruction methods. In total, our work highlights the diverse questions that evolutionary studies attempt to address and the different biological levels that can be studied to answer these questions.Georgia Institute of TechnologyGaucher, Eric2013-09-19T13:03:32Z2013-09-19T13:03:32Z2012-07-02Dissertationhttp://hdl.handle.net/1853/48988en_US
collection NDLTD
language en_US
sources NDLTD
topic 3-isopropylmalate dehydrogenase
Catenin
Mycoplasma
Bioinformatics
Molecular evolution
Paleoenvironment
Synthetic genome
Avian influenza virus
Minimal genome
Phylogeny
Evolution (Biology)
Bioinformatics
spellingShingle 3-isopropylmalate dehydrogenase
Catenin
Mycoplasma
Bioinformatics
Molecular evolution
Paleoenvironment
Synthetic genome
Avian influenza virus
Minimal genome
Phylogeny
Evolution (Biology)
Bioinformatics
Zhao, Ziming
Exploiting phylogenetics to understand genome evolution in both modern and ancestral organisms
description Computational evolutionary analyses, particularly phylogenetics and ancestral reconstruction, have been extensively exploited under different algorithms and evolutionary models to better understand genome evolution from both small- and large-scale perspectives in order to assign genotypes based on assortment, resolve species relationships and gene annotation issues, further understand gene gain/loss within individual gene families, measure functional divergence among homologs, and infer ancestral character states. These evolutionary studies provide us with insights into biologically relevant issues including paleoenvironments inferred from resurrected proteins, developmental physiology associated with functional divergence of duplicated genes, viral epidemics and modes of transmission in attempt to better prepare, prevent and control diseases, evolution of lineage-specific pathogenicity, and attempts to create a synthetic ancient organism that would benefit the field of synthetic biology. Our work also provides us with greater insights into the accuracies and limitations of ancestral sequence reconstruction methods. In total, our work highlights the diverse questions that evolutionary studies attempt to address and the different biological levels that can be studied to answer these questions.
author2 Gaucher, Eric
author_facet Gaucher, Eric
Zhao, Ziming
author Zhao, Ziming
author_sort Zhao, Ziming
title Exploiting phylogenetics to understand genome evolution in both modern and ancestral organisms
title_short Exploiting phylogenetics to understand genome evolution in both modern and ancestral organisms
title_full Exploiting phylogenetics to understand genome evolution in both modern and ancestral organisms
title_fullStr Exploiting phylogenetics to understand genome evolution in both modern and ancestral organisms
title_full_unstemmed Exploiting phylogenetics to understand genome evolution in both modern and ancestral organisms
title_sort exploiting phylogenetics to understand genome evolution in both modern and ancestral organisms
publisher Georgia Institute of Technology
publishDate 2013
url http://hdl.handle.net/1853/48988
work_keys_str_mv AT zhaoziming exploitingphylogeneticstounderstandgenomeevolutioninbothmodernandancestralorganisms
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